AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG026011

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026011 MtrunA17_Chr5g0409071 97.682 302 4 1 1 299 1 302 0.0 596
MsaG026011 MtrunA17_Chr4g0006261 50.000 252 110 5 44 294 40 276 1.42e-56 184
MsaG026011 MtrunA17_Chr7g0242591 49.412 255 114 5 44 297 51 291 4.79e-51 170
MsaG026011 MtrunA17_Chr3g0123021 50.820 61 30 0 46 106 77 137 5.27e-14 71.6
MsaG026011 MtrunA17_Chr2g0290511 30.508 118 71 3 30 138 241 356 7.69e-13 68.2
MsaG026011 MtrunA17_Chr1g0201911 29.752 121 75 2 22 132 342 462 1.52e-12 67.8
MsaG026011 MtrunA17_Chr1g0201941 33.696 92 56 3 46 133 455 545 3.77e-11 63.5
MsaG026011 MtrunA17_Chr6g0463941 34.066 91 55 3 46 132 465 554 7.31e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026011 AT2G38250.1 42.960 277 141 5 26 299 26 288 3.22e-49 165
MsaG026011 AT5G01380.1 39.590 293 148 6 26 299 33 315 1.23e-40 144
MsaG026011 AT1G13450.4 40.449 89 52 1 46 133 87 175 2.61e-15 73.9
MsaG026011 AT1G13450.3 40.449 89 52 1 46 133 87 175 4.16e-15 74.3
MsaG026011 AT1G13450.2 40.449 89 52 1 46 133 87 175 4.16e-15 74.3
MsaG026011 AT1G13450.1 40.449 89 52 1 46 133 87 175 1.19e-14 74.3
MsaG026011 AT3G25990.1 39.785 93 48 2 46 132 55 145 1.84e-14 73.6
MsaG026011 AT1G76890.2 34.711 121 74 3 19 135 371 490 9.20e-14 72.0
MsaG026011 AT1G76880.1 34.579 107 60 4 30 132 398 498 2.52e-11 64.7

Find 82 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATGAATGAGTTTGTTTAAA+AGG 0.131414 5:+15758582 None:intergenic
CACTTGCATTTACACTGTTC+AGG 0.240715 5:+15760467 None:intergenic
GGGCATTGCTTTCCATGTTC+TGG 0.245787 5:+15759112 None:intergenic
CGATGCTCTGGCAGCTCGCC+TGG 0.246150 5:-15760714 MsaT026011.1:CDS
CCAAAGCGTCTTGTTCCTCT+TGG 0.348352 5:+15760535 None:intergenic
AGATGAGGGAGAGAGGGTAT+AGG 0.349714 5:-15760496 MsaT026011.1:CDS
CGAGAAGCAATACACGTAAA+AGG 0.365476 5:-15758898 MsaT026011.1:CDS
GGAGAGATTAATGATTGAAC+AGG 0.371512 5:-15758681 MsaT026011.1:CDS
CAAGAGGAACAAGACGCTTT+GGG 0.378761 5:-15760534 MsaT026011.1:CDS
GAGACTGAGGGAGGAGAATA+GGG 0.379742 5:-15758633 MsaT026011.1:CDS
GGAGACTGAGGGAGGAGAAT+AGG 0.381910 5:-15758634 MsaT026011.1:CDS
CCAAGAGGAACAAGACGCTT+TGG 0.398905 5:-15760535 MsaT026011.1:CDS
GAATCTTGTTAATCGCTATA+AGG 0.403188 5:-15760441 MsaT026011.1:intron
TTGCATGCTATGTGCTCTTT+CGG 0.404296 5:+15759060 None:intergenic
GATGCTCTGGCAGCTCGCCT+GGG 0.407206 5:-15760713 MsaT026011.1:CDS
ATGAATGAGTTTGTTTAAAA+GGG 0.419814 5:+15758583 None:intergenic
CCGAAAATGTACGGCGGCGG+TGG 0.422205 5:-15760743 None:intergenic
ACTTGCATTTACACTGTTCA+GGG 0.425547 5:+15760468 None:intergenic
CAAGAGAGTTCATAGCGATA+AGG 0.454890 5:-15760586 MsaT026011.1:CDS
GAACAAGACGCTTTGGGAAG+TGG 0.456312 5:-15760528 MsaT026011.1:CDS
AAGAGAGTTCATAGCGATAA+GGG 0.460403 5:-15760585 MsaT026011.1:CDS
AGTTCGAAGATGAGGGAGAG+AGG 0.463651 5:-15760503 MsaT026011.1:CDS
TCAGCCGCAGTGGAGTCAAC+AGG 0.465174 5:-15760612 MsaT026011.1:CDS
CATAGCGATAAGGGCGGAGC+TGG 0.469611 5:-15760576 MsaT026011.1:CDS
ACAGGAATGGCGGCAGTCAA+TGG 0.476521 5:-15758717 MsaT026011.1:CDS
AAAATGTACGGCGGCGGTGG+AGG 0.483528 5:-15760740 MsaT026011.1:CDS
AGGAGAATAGGGCAGAGAGA+AGG 0.485185 5:-15758622 MsaT026011.1:CDS
GGAGAATAGGGCAGAGAGAA+GGG 0.485668 5:-15758621 MsaT026011.1:CDS
AGTGGTGAGTTCGAAGATGA+GGG 0.492563 5:-15760510 MsaT026011.1:CDS
GATGCAGTGGAGGGAGGTGA+TGG 0.493197 5:-15758771 MsaT026011.1:CDS
TGAGGGAGAGAGGGTATAGG+AGG 0.495279 5:-15760493 MsaT026011.1:CDS
AAGTGGTGAGTTCGAAGATG+AGG 0.496550 5:-15760511 MsaT026011.1:CDS
TTGCAACAGAGAAGTCTTCA+AGG 0.502672 5:-15758862 MsaT026011.1:CDS
CGGTGGAGGAGACGATGCTC+TGG 0.506430 5:-15760726 MsaT026011.1:CDS
TGACTCCACTGCGGCTGAGC+TGG 0.508087 5:+15760617 None:intergenic
AACATCGTCGTTGATGTCTC+CGG 0.509011 5:-15760663 MsaT026011.1:CDS
AACAGTTGTTTGAACAGGAA+TGG 0.513571 5:-15758730 MsaT026011.1:CDS
CTCTCCTCTCTCATCGCCGC+CGG 0.513918 5:+15760644 None:intergenic
GATTAATGATTGAACAGGAA+TGG 0.519107 5:-15758676 MsaT026011.1:CDS
GAGGGAGGTGATGGAAAGGC+GGG 0.529349 5:-15758762 MsaT026011.1:CDS
GGAGTGAAGAAAATAAGAAG+TGG 0.531731 5:-15758992 MsaT026011.1:CDS
GGAGGGAAAGAGAAGAGCAT+AGG 0.544277 5:-15758655 MsaT026011.1:CDS
TAATGATTGAACAGGAATGG+AGG 0.545461 5:-15758673 MsaT026011.1:CDS
CGATAAGGGCGGAGCTGGAG+AGG 0.548497 5:-15760571 MsaT026011.1:CDS
TTACGTGTATTGCTTCTCGC+AGG 0.548915 5:+15758902 None:intergenic
AATACACGTAAAAGGAAAGC+TGG 0.551659 5:-15758890 MsaT026011.1:CDS
GGGTACCAGCTCAGCCGCAG+TGG 0.554507 5:-15760622 MsaT026011.1:CDS
GATAAGGGCGGAGCTGGAGA+GGG 0.555293 5:-15760570 MsaT026011.1:CDS
GTTCGAAGATGAGGGAGAGA+GGG 0.555989 5:-15760502 MsaT026011.1:CDS
AATGGAGATGCAGTGGAGGG+AGG 0.556920 5:-15758777 MsaT026011.1:CDS
GGAGGGAGGTGATGGAAAGG+CGG 0.558316 5:-15758763 MsaT026011.1:CDS
ATGCTCTGGCAGCTCGCCTG+GGG 0.558467 5:-15760712 MsaT026011.1:CDS
GGAGACATCAACGACGATGT+TGG 0.560523 5:+15760665 None:intergenic
GTGACGGTGGTACTATCCCC+AGG 0.560653 5:+15760696 None:intergenic
AATGATTGAACAGGAATGGA+GGG 0.570661 5:-15758672 MsaT026011.1:CDS
CTGAACAGTGTAAATGCAAG+TGG 0.574316 5:-15760466 MsaT026011.1:CDS
AGTTGAAGATGACAGTGAAG+AGG 0.575058 5:-15758930 MsaT026011.1:CDS
CTGAGAATTCGTCAGAGGAT+CGG 0.577596 5:+15758966 None:intergenic
CGAATTCTCAGAAGATGATG+AGG 0.577887 5:-15758954 MsaT026011.1:CDS
GAGACATCTGATCCAGAACA+TGG 0.596082 5:-15759124 MsaT026011.1:CDS
GAGAAGAGCATAGGAGACTG+AGG 0.597643 5:-15758646 MsaT026011.1:CDS
TGACAGAAACCGAAAATGTA+CGG 0.599687 5:-15760752 None:intergenic
AGTCAATGGAAAAGCTTGAG+AGG 0.603425 5:-15758703 MsaT026011.1:CDS
GGCGGCGATGAGAGAGGAGA+GGG 0.609377 5:-15760642 MsaT026011.1:CDS
AGTGGAGGGAGGTGATGGAA+AGG 0.613399 5:-15758766 MsaT026011.1:CDS
GTCAATGGAAAAGCTTGAGA+GGG 0.615909 5:-15758702 MsaT026011.1:CDS
GTCTCCGGCGGCGATGAGAG+AGG 0.619988 5:-15760648 MsaT026011.1:CDS
TGCAACAGAGAAGTCTTCAA+GGG 0.632169 5:-15758861 MsaT026011.1:CDS
TAATATTCAAGAAATGCTCA+AGG 0.634081 5:-15758822 MsaT026011.1:CDS
AGAAGAGCATAGGAGACTGA+GGG 0.643488 5:-15758645 MsaT026011.1:CDS
ATCTTCTGAGAATTCGTCAG+AGG 0.649927 5:+15758961 None:intergenic
CGGCGGCGATGAGAGAGGAG+AGG 0.655250 5:-15760643 MsaT026011.1:CDS
AGAGCATAGGAGACTGAGGG+AGG 0.658874 5:-15758642 MsaT026011.1:CDS
GGGATTTCACTGCTTCCAAG+AGG 0.659081 5:-15760550 MsaT026011.1:CDS
ATCGTCGTTGATGTCTCCGG+CGG 0.659235 5:-15760660 MsaT026011.1:CDS
GATGTTGGAATCAGAAGTGA+CGG 0.659264 5:+15760680 None:intergenic
AGTTGTTTGAACAGGAATGG+CGG 0.675425 5:-15758727 MsaT026011.1:CDS
AAACCGAAAATGTACGGCGG+CGG 0.675954 5:-15760746 None:intergenic
AGAGTTCATAGCGATAAGGG+CGG 0.691633 5:-15760582 MsaT026011.1:CDS
GTTGGAATCAGAAGTGACGG+TGG 0.741050 5:+15760683 None:intergenic
CAGAAACCGAAAATGTACGG+CGG 0.798682 5:-15760749 None:intergenic
GTCTCCTGTTGACTCCACTG+CGG 0.804513 5:+15760608 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 15758571 15760759 15758571 ID=MsaG026011
Chr5 mRNA 15758571 15760759 15758571 ID=MsaT026011.1;Parent=MsaG026011
Chr5 exon 15758571 15759152 15758571 ID=MsaT026011.1.exon2;Parent=MsaT026011.1
Chr5 CDS 15758571 15759152 15758571 ID=cds.MsaT026011.1;Parent=MsaT026011.1
Chr5 exon 15760442 15760759 15760442 ID=MsaT026011.1.exon1;Parent=MsaT026011.1
Chr5 CDS 15760442 15760759 15760442 ID=cds.MsaT026011.1;Parent=MsaT026011.1
Gene Sequence

>MsaT026011.1

ATGTACGGCGGCGGTGGAGGAGACGATGCTCTGGCAGCTCGCCTGGGGATAGTACCACCGTCACTTCTGATTCCAACATCGTCGTTGATGTCTCCGGCGGCGATGAGAGAGGAGAGGGTACCAGCTCAGCCGCAGTGGAGTCAACAGGAGACAAGAGAGTTCATAGCGATAAGGGCGGAGCTGGAGAGGGATTTCACTGCTTCCAAGAGGAACAAGACGCTTTGGGAAGTGGTGAGTTCGAAGATGAGGGAGAGAGGGTATAGGAGGAGCCCTGAACAGTGTAAATGCAAGTGGAAGAATCTTGTTAATCGCTATAAGGGAAAAGAGACATCTGATCCAGAACATGGAAAGCAATGCCCATTTTTTGAAGAATTGCATGCAGTTTTTACCGAAAGAGCACATAGCATGCAACGCTTACTTCTTGAATCTGAAACTCGTTCAGCTCAAACAAAAAAAGGAGTGAAGAAAATAAGAAGTGGAGACCGATCCTCTGACGAATTCTCAGAAGATGATGAGGAAGTTGAAGATGACAGTGAAGAGGAGAGACCTGCGAGAAGCAATACACGTAAAAGGAAAGCTGGCAAAATTGCAACAGAGAAGTCTTCAAGGGCAAACAATAGTACTAGTAATATTCAAGAAATGCTCAAGGAATTTTTCCAACACCAATTAAAAATGGAGATGCAGTGGAGGGAGGTGATGGAAAGGCGGGCACATGAAAAACAGTTGTTTGAACAGGAATGGCGGCAGTCAATGGAAAAGCTTGAGAGGGAGAGATTAATGATTGAACAGGAATGGAGGGAAAGAGAAGAGCATAGGAGACTGAGGGAGGAGAATAGGGCAGAGAGAAGGGACGCTTTGTTGACGACCCTTTTAAACAAACTCATTCATGAATCTAACTAA
Protein sequence

>MsaT026011.1

MYGGGGGDDALAARLGIVPPSLLIPTSSLMSPAAMREERVPAQPQWSQQETREFIAIRAELERDFTASKRNKTLWEVVSSKMRERGYRRSPEQCKCKWKNLVNRYKGKETSDPEHGKQCPFFEELHAVFTERAHSMQRLLLESETRSAQTKKGVKKIRSGDRSSDEFSEDDEEVEDDSEEERPARSNTRKRKAGKIATEKSSRANNSTSNIQEMLKEFFQHQLKMEMQWREVMERRAHEKQLFEQEWRQSMEKLERERLMIEQEWREREEHRRLREENRAERRDALLTTLLNKLIHESN*